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Coexpression cluster:C2131

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Full id: C2131_Smooth_Fibroblast_gall_leiomyoma_bone_Chondrocyte_mesenchymal



Phase1 CAGE Peaks

Hg19::chr11:44117206..44117218,+p2@EXT2
Hg19::chr11:44117219..44117240,+p1@EXT2
Hg19::chr11:44117242..44117253,+p3@EXT2
Hg19::chr11:44117260..44117283,+p4@EXT2


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
vasculature5.07e-1778
vascular system5.07e-1778
multilaminar epithelium1.01e-1683
mesenchyme2.00e-16160
entire embryonic mesenchyme2.00e-16160
vessel8.39e-1668
organism subdivision8.71e-16264
epithelial tube9.30e-16117
splanchnic layer of lateral plate mesoderm3.04e-1583
epithelial tube open at both ends8.91e-1559
blood vessel8.91e-1559
blood vasculature8.91e-1559
vascular cord8.91e-1559
artery1.35e-1442
arterial blood vessel1.35e-1442
arterial system1.35e-1442
unilaminar epithelium2.01e-14148
trunk3.13e-14199
somite5.93e-1471
presomitic mesoderm5.93e-1471
presumptive segmental plate5.93e-1471
dermomyotome5.93e-1471
trunk paraxial mesoderm5.93e-1471
trunk mesenchyme6.21e-14122
dense mesenchyme tissue6.56e-1473
multi-cellular organism6.98e-14656
epithelial vesicle8.93e-1478
skeletal muscle tissue1.32e-1362
striated muscle tissue1.32e-1362
myotome1.32e-1362
anatomical system1.33e-13624
paraxial mesoderm2.08e-1372
presumptive paraxial mesoderm2.08e-1372
anatomical group2.82e-13625
muscle tissue2.93e-1364
musculature2.93e-1364
musculature of body2.93e-1364
systemic artery8.55e-1333
systemic arterial system8.55e-1333
cell layer2.61e-12309
epithelium3.44e-12306
surface structure1.56e-1199
anatomical cluster2.63e-11373
multi-tissue structure9.66e-11342
cardiovascular system1.70e-09109
circulatory system2.39e-09112
anatomical conduit6.41e-08240
integument1.09e-0746
integumental system1.09e-0746
skin of body3.27e-0741
organ component layer5.87e-0766


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CCNT2#90546.336201576962630.0006203100587215640.00511241810470498
CTCF#1066445.360256373075030.001211145381643620.00815701376884493
CTCFL#140690419.74647435897446.5732084880439e-060.000192620460517064
ELF1#199744.258097958807540.003041525565781240.0160536659708206
ETS1#211349.728760922202340.0001115955317418140.00154308562684804
FOXA1#3169411.08141974938556.62943068949433e-050.00106913389712801
HEY1#2346244.040111043105710.00375304636917980.0185527717967894
HMGN3#932448.178547723350590.0002234570284440470.00247745526472058
NRF1#4899412.21027944771094.49717228915276e-050.000791773730119395
SIN3A#2594245.408884726815140.001168172384885160.00794185364568551
SMC3#9126415.04493284493281.95092670935632e-050.000437144034753196
SP2#6668426.15353049384462.13562021071447e-067.73914084617658e-05
TAF1#687243.343046285745290.008005664898701650.0321244721387598
TBP#690843.706770687096390.005296377814784350.0243484638875897
ZNF143#7702413.50087655222793.00867915035614e-050.000619525713296618



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.